endomorphosis · endomorphosis · May 30, 2025 · May 30, 2025 · May 30, 2025 · May 30, 2025
diff --git a/=6.30.1 b/=6.30.1
diff --git a/MIGRATION_ORGANIZATION.md b/MIGRATION_ORGANIZATION.md
@@ -0,0 +1,51 @@
+# IPFS Datasets MCP Server - Organized Structure
+
+## 📁 Directory Organization
+
+### Root Directory (Essential Files Only)
+- `README.md` - Main project documentation
+- `requirements.txt` - Python dependencies  
+- `pyproject.toml` - Project configuration
+- `setup.py` - Package setup
+- `LICENSE` - Project license
+- `.vscode/` - VS Code configuration (including MCP config)
+- `ipfs_datasets_py/` - Main source code
+- `config/` - Configuration files
+- `docs/` - Documentation
+
+### Migration Archive Directories
+
+#### `migration_docs/`
+- All migration documentation and guides
+- Status reports and analysis files
+- Configuration summaries
+
+#### `migration_tests/`  
+- All test files created during migration
+- Comprehensive test suites
+- Validation scripts
+
+#### `migration_scripts/`
+- Utility scripts created during migration
+- Debug and diagnostic tools
+- Migration helper scripts
+
+#### `migration_logs/`
+- Log files and test results
+- Temporary configuration files
+- Build artifacts
+
+#### `migration_temp/`
+- Generator scripts for test creation
+- Temporary files and experiments
+
+## 🎯 Migration Status: COMPLETE ✅
+
+The MCP server migration is complete. All migration-related files have been organized into the above directories to keep the root clean while preserving the work history.
+
+## 🚀 Next Steps
+
+1. Restart MCP server in VS Code: `Ctrl+Shift+P` → "MCP: Restart All Servers"
+2. Test tools availability in VS Code chat
+3. Verify input validation is working
+4. Begin using the migrated MCP server!
diff --git a/check_available_functions.py → ...on_artifacts/check_available_functions.py b/check_available_functions.py → ...on_artifacts/check_available_functions.py
diff --git a/check_import.py → archive/migration_artifacts/check_import.py b/check_import.py → archive/migration_artifacts/check_import.py
diff --git a/check_mcp_server.py → ...e/migration_artifacts/check_mcp_server.py b/check_mcp_server.py → ...e/migration_artifacts/check_mcp_server.py
diff --git a/check_mcp_server_structure.sh → ...n_artifacts/check_mcp_server_structure.sh b/check_mcp_server_structure.sh → ...n_artifacts/check_mcp_server_structure.sh
diff --git a/check_mcp_tool_files.py → ...gration_artifacts/check_mcp_tool_files.py b/check_mcp_tool_files.py → ...gration_artifacts/check_mcp_tool_files.py
diff --git a/check_mcp_tools.py → ...ve/migration_artifacts/check_mcp_tools.py b/check_mcp_tools.py → ...ve/migration_artifacts/check_mcp_tools.py
diff --git a/completion_output.txt → ...migration_artifacts/completion_output.txt b/completion_output.txt → ...migration_artifacts/completion_output.txt
diff --git a/debug_config_paths.py → ...migration_artifacts/debug_config_paths.py b/debug_config_paths.py → ...migration_artifacts/debug_config_paths.py
diff --git a/debug_function_discovery.py → ...ion_artifacts/debug_function_discovery.py b/debug_function_discovery.py → ...ion_artifacts/debug_function_discovery.py
diff --git a/debug_mcp_format.py → ...e/migration_artifacts/debug_mcp_format.py b/debug_mcp_format.py → ...e/migration_artifacts/debug_mcp_format.py
diff --git a/debug_tool.py → archive/migration_artifacts/debug_tool.py b/debug_tool.py → archive/migration_artifacts/debug_tool.py
diff --git a/dependency_checker.py → ...migration_artifacts/dependency_checker.py b/dependency_checker.py → ...migration_artifacts/dependency_checker.py
diff --git a/final_comprehensive_test_report.json → ...acts/final_comprehensive_test_report.json b/final_comprehensive_test_report.json → ...acts/final_comprehensive_test_report.json
diff --git a/final_status_check.py → ...migration_artifacts/final_status_check.py b/final_status_check.py → ...migration_artifacts/final_status_check.py
diff --git a/fix_dataset_lint_issues.py → ...tion_artifacts/fix_dataset_lint_issues.py b/fix_dataset_lint_issues.py → ...tion_artifacts/fix_dataset_lint_issues.py
diff --git a/fix_indent.py → archive/migration_artifacts/fix_indent.py b/fix_indent.py → archive/migration_artifacts/fix_indent.py
diff --git a/generate_audit_report.py → ...ration_artifacts/generate_audit_report.py b/generate_audit_report.py → ...ration_artifacts/generate_audit_report.py
diff --git a/import_debug.py → archive/migration_artifacts/import_debug.py b/import_debug.py → archive/migration_artifacts/import_debug.py
diff --git a/import_fix_summary.md → ...migration_artifacts/import_fix_summary.md b/import_fix_summary.md → ...migration_artifacts/import_fix_summary.md
diff --git a/individual_tools_test_log.txt → ...n_artifacts/individual_tools_test_log.txt b/individual_tools_test_log.txt → ...n_artifacts/individual_tools_test_log.txt
diff --git a/install_mcp_deps.sh → ...e/migration_artifacts/install_mcp_deps.sh b/install_mcp_deps.sh → ...e/migration_artifacts/install_mcp_deps.sh
diff --git a/install_missing_dependencies.sh → ...artifacts/install_missing_dependencies.sh b/install_missing_dependencies.sh → ...artifacts/install_missing_dependencies.sh
diff --git a/list_mcp_structure.py → ...migration_artifacts/list_mcp_structure.py b/list_mcp_structure.py → ...migration_artifacts/list_mcp_structure.py
diff --git a/mcp_api_coverage_results.json → ...n_artifacts/mcp_api_coverage_results.json b/mcp_api_coverage_results.json → ...n_artifacts/mcp_api_coverage_results.json
diff --git a/mcp_completion_plan.py → ...igration_artifacts/mcp_completion_plan.py b/mcp_completion_plan.py → ...igration_artifacts/mcp_completion_plan.py
diff --git a/mcp_integration_test_results.json → ...tifacts/mcp_integration_test_results.json b/mcp_integration_test_results.json → ...tifacts/mcp_integration_test_results.json
diff --git a/mcp_test_analysis.md → .../migration_artifacts/mcp_test_analysis.md b/mcp_test_analysis.md → .../migration_artifacts/mcp_test_analysis.md
diff --git a/mcp_test_results.json → ...migration_artifacts/mcp_test_results.json b/mcp_test_results.json → ...migration_artifacts/mcp_test_results.json
diff --git a/mcp_tool_test_results.json → ...tion_artifacts/mcp_tool_test_results.json b/mcp_tool_test_results.json → ...tion_artifacts/mcp_tool_test_results.json
diff --git a/mcp_tools_inventory.json → ...ration_artifacts/mcp_tools_inventory.json b/mcp_tools_inventory.json → ...ration_artifacts/mcp_tools_inventory.json
diff --git a/mcp_tools_mapping.json → ...igration_artifacts/mcp_tools_mapping.json b/mcp_tools_mapping.json → ...igration_artifacts/mcp_tools_mapping.json
diff --git a/mcp_tools_test_coverage.json → ...on_artifacts/mcp_tools_test_coverage.json b/mcp_tools_test_coverage.json → ...on_artifacts/mcp_tools_test_coverage.json
diff --git a/mcp_tools_test_coverage_report.md → ...tifacts/mcp_tools_test_coverage_report.md b/mcp_tools_test_coverage_report.md → ...tifacts/mcp_tools_test_coverage_report.md
diff --git a/mcp_tools_test_report.json → ...tion_artifacts/mcp_tools_test_report.json b/mcp_tools_test_report.json → ...tion_artifacts/mcp_tools_test_report.json
diff --git a/mcp_tools_test_results.json → ...ion_artifacts/mcp_tools_test_results.json b/mcp_tools_test_results.json → ...ion_artifacts/mcp_tools_test_results.json
diff --git a/mcp_tools_test_summary.md → ...ation_artifacts/mcp_tools_test_summary.md b/mcp_tools_test_summary.md → ...ation_artifacts/mcp_tools_test_summary.md
diff --git a/mcp_tools_verification.json → ...ion_artifacts/mcp_tools_verification.json b/mcp_tools_verification.json → ...ion_artifacts/mcp_tools_verification.json
diff --git a/package.json → archive/migration_artifacts/package.json b/package.json → archive/migration_artifacts/package.json
diff --git a/performance_profiler.py → ...gration_artifacts/performance_profiler.py b/performance_profiler.py → ...gration_artifacts/performance_profiler.py
diff --git a/phase1_test_output.txt → ...igration_artifacts/phase1_test_output.txt b/phase1_test_output.txt → ...igration_artifacts/phase1_test_output.txt
diff --git a/project_status_report.json → ...tion_artifacts/project_status_report.json b/project_status_report.json → ...tion_artifacts/project_status_report.json
diff --git a/project_status_scanner.py → ...ation_artifacts/project_status_scanner.py b/project_status_scanner.py → ...ation_artifacts/project_status_scanner.py
diff --git a/archive/migration_artifacts/requirements.txt b/archive/migration_artifacts/requirements.txt
@@ -0,0 +1,55 @@
+## Core dependencies
+orbitdb_kit_py
+ipfs_kit_py
+ipfs_model_manager_py
+ipfs_faiss_py
+transformers
+numpy
+urllib3
+requests
+boto3
+ipfsspec
+duckdb
+datasets
+pyarrow
+fsspec
+
+## Phase 1 dependencies
+# IPFS integration
+ipfshttpclient>=0.8.0a2
+
+# IPLD components
+multiformats>=0.2.1
+
+# Optional but recommended IPLD implementations
+ipld-car>=0.0.1
+ipld-dag-pb>=0.0.1
+
+# Web Archive integration
+archivenow>=2020.7.18.12.19.44
+ipwb>=0.2024.10.24.1853
+beautifulsoup4>=4.11.1
+warcio>=1.7.4
+matplotlib>=3.10.0
+jsonschema>=4.23.0
+networkx>=3.1
+
+# Data processing
+pyarrow>=10.0.0
+pandas>=1.5.0
+datasets>=2.10.0
+
+# P2P communication
+libp2p>=0.2.7  # Optional: for distributed dataset management
+
+# Testing
+pytest>=7.3.1
+pytest-cov>=4.1.0
+pytest-asyncio>=0.21.0  # For testing async functions
+
+# MCP Server dependencies
+mcp>=1.9.1  # Replace with actual MCP server package name
+jinja2
+pyyaml
+aiofile
+flake8
diff --git a/simple_diagnostic.py → .../migration_artifacts/simple_diagnostic.py b/simple_diagnostic.py → .../migration_artifacts/simple_diagnostic.py
diff --git a/simple_mcp_tools_discovery.py → ...n_artifacts/simple_mcp_tools_discovery.py b/simple_mcp_tools_discovery.py → ...n_artifacts/simple_mcp_tools_discovery.py
diff --git a/simple_status_check.py → ...igration_artifacts/simple_status_check.py b/simple_status_check.py → ...igration_artifacts/simple_status_check.py
diff --git a/simple_tool_check.py → .../migration_artifacts/simple_tool_check.py b/simple_tool_check.py → .../migration_artifacts/simple_tool_check.py
diff --git a/simple_tool_discovery.py → ...ration_artifacts/simple_tool_discovery.py b/simple_tool_discovery.py → ...ration_artifacts/simple_tool_discovery.py
diff --git a/start_mcp_server.sh → ...e/migration_artifacts/start_mcp_server.sh b/start_mcp_server.sh → ...e/migration_artifacts/start_mcp_server.sh
diff --git a/summary.txt → archive/migration_artifacts/summary.txt b/summary.txt → archive/migration_artifacts/summary.txt
diff --git a/test_completion_summary.json → ...on_artifacts/test_completion_summary.json b/test_completion_summary.json → ...on_artifacts/test_completion_summary.json
diff --git a/test_mcp_config.json → .../migration_artifacts/test_mcp_config.json b/test_mcp_config.json → .../migration_artifacts/test_mcp_config.json
diff --git a/tool_fixes_suggestions.md → ...ation_artifacts/tool_fixes_suggestions.md b/tool_fixes_suggestions.md → ...ation_artifacts/tool_fixes_suggestions.md
diff --git a/tool_test_results.json → ...igration_artifacts/tool_test_results.json b/tool_test_results.json → ...igration_artifacts/tool_test_results.json
diff --git a/validate_phase1.py → ...ve/migration_artifacts/validate_phase1.py b/validate_phase1.py → ...ve/migration_artifacts/validate_phase1.py
diff --git a/validate_tools.py → ...ive/migration_artifacts/validate_tools.py b/validate_tools.py → ...ive/migration_artifacts/validate_tools.py
diff --git a/verify_and_create_mcp_tools.py → ..._artifacts/verify_and_create_mcp_tools.py b/verify_and_create_mcp_tools.py → ..._artifacts/verify_and_create_mcp_tools.py
diff --git a/verify_mcp_config.py → .../migration_artifacts/verify_mcp_config.py b/verify_mcp_config.py → .../migration_artifacts/verify_mcp_config.py
diff --git a/verify_web_archive_tools.py → ...ion_artifacts/verify_web_archive_tools.py b/verify_web_archive_tools.py → ...ion_artifacts/verify_web_archive_tools.py
diff --git a/claudes_toolbox b/claudes_toolbox
diff --git a/claudes_toolbox-1/README.md b/claudes_toolbox-1/README.md
diff --git a/claudes_toolbox-1/configs/__init__.py b/claudes_toolbox-1/configs/__init__.py
diff --git a/claudes_toolbox-1/configs/config.py b/claudes_toolbox-1/configs/config.py
diff --git a/claudes_toolbox-1/logger.py b/claudes_toolbox-1/logger.py
diff --git a/claudes_toolbox-1/main.py b/claudes_toolbox-1/main.py
diff --git a/claudes_toolbox-1/requirements.txt b/claudes_toolbox-1/requirements.txt
diff --git a/claudes_toolbox-1/server.py b/claudes_toolbox-1/server.py
diff --git a/claudes_toolbox-1/tools/__init__.py b/claudes_toolbox-1/tools/__init__.py
diff --git a/claudes_toolbox-1/tools/cli/__init__.py b/claudes_toolbox-1/tools/cli/__init__.py
diff --git a/claudes_toolbox-1/tools/cli/codebase_search.py b/claudes_toolbox-1/tools/cli/codebase_search.py
diff --git a/claudes_toolbox-1/tools/cli/documentation_generator.py b/claudes_toolbox-1/tools/cli/documentation_generator.py
diff --git a/claudes_toolbox-1/tools/cli/test_generator.py b/claudes_toolbox-1/tools/cli/test_generator.py
diff --git a/claudes_toolbox-1/tools/functions/__init__.py b/claudes_toolbox-1/tools/functions/__init__.py
diff --git a/claudes_toolbox-1/tools/functions/audit_tools.py b/claudes_toolbox-1/tools/functions/audit_tools.py
diff --git a/claudes_toolbox-1/tools/functions/dataset_tools.py b/claudes_toolbox-1/tools/functions/dataset_tools.py
diff --git a/claudes_toolbox-1/tools/functions/ipfs_tools.py b/claudes_toolbox-1/tools/functions/ipfs_tools.py
diff --git a/claudes_toolbox-1/tools/functions/provenance_tools.py b/claudes_toolbox-1/tools/functions/provenance_tools.py
diff --git a/claudes_toolbox-1/utils/__init__.py b/claudes_toolbox-1/utils/__init__.py
diff --git a/claudes_toolbox-1/utils/run_tool.py b/claudes_toolbox-1/utils/run_tool.py
diff --git a/claudes_toolbox-1/utils/turn_argparse_help_into_docstring.py b/claudes_toolbox-1/utils/turn_argparse_help_into_docstring.py